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Clinical perspectives in integrating whole genome sequencing into the investigation of healthcare and public health outbreaks – hype or help?
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dc.contributor.author | Parcell, Benjamin J. | |
dc.contributor.author | Gillespie, Stephen H. | |
dc.contributor.author | Pettigrew, Kerry A. | |
dc.contributor.author | Holden, Matthew T.G. | |
dc.date.accessioned | 2021-01-05T11:30:03Z | |
dc.date.available | 2021-01-05T11:30:03Z | |
dc.date.issued | 2021-03 | |
dc.identifier | 271172997 | |
dc.identifier | cd4a479d-6f0c-4152-a225-aa779493526b | |
dc.identifier | 33181280 | |
dc.identifier | 85098588180 | |
dc.identifier | 000620701000001 | |
dc.identifier.citation | Parcell , B J , Gillespie , S H , Pettigrew , K A & Holden , M T G 2021 , ' Clinical perspectives in integrating whole genome sequencing into the investigation of healthcare and public health outbreaks – hype or help? ' , Journal of Hospital Infection , vol. 109 , pp. 1-9 . https://doi.org/10.1016/j.jhin.2020.11.001 | en |
dc.identifier.issn | 0195-6701 | |
dc.identifier.other | RIS: urn:F3826F66BA43CE245D50F0108B6ECF18 | |
dc.identifier.other | ORCID: /0000-0001-6537-7712/work/83481822 | |
dc.identifier.other | ORCID: /0000-0002-4958-2166/work/83481884 | |
dc.identifier.uri | https://hdl.handle.net/10023/21219 | |
dc.description | Bioinformatics and Computational Biology analyses were supported by the University of St Andrews Bioinformatics Unit which is funded by a Wellcome Trust ISSF award [grant 097831/Z/11/Z]. The SHAIPI consortium is funded by the Chief Scientist Office through the Scottish Infection Research Network (SIRN10). | en |
dc.description.abstract | Outbreaks pose a significant patient safety risk as well as being costly and time consuming to investigate. The implementation of targeted infection prevention and control (IPC) measures relies on infection prevention and control teams (IPCTs) having access to rapid results that accurately detect resistance, and typing results that give clinically useful information on the relatedness of isolates. At present, determining whether transmission has occurred can be a major challenge. Conventional typing results do not always have sufficient granularity or robustness to unequivocally define strains, and sufficient epidemiological data to establish links between patients and the environment is not always available. Whole genome sequencing (WGS) has emerged as the ultimate genotyping tool, but has not yet fully crossed the divide between research method and routine clinical diagnostic microbiology technique. A clinical WGS service was officially established in 2014 as part of the Scottish Healthcare Associated Infection Prevention Institute (SHAIPI) to confirm or refute outbreaks in hospital settings from across Scotland. In this personal view we describe our experiences that we believe provide new insights into the practical application of the use of WGS to investigate healthcare and public health outbreaks. We also propose solutions to overcome barriers to implementation of this technology in a clinical environment. | |
dc.format.extent | 9 | |
dc.format.extent | 1486557 | |
dc.language.iso | eng | |
dc.relation.ispartof | Journal of Hospital Infection | en |
dc.subject | Whole genome sequencing | en |
dc.subject | Healthcare associated infections | en |
dc.subject | Typing | en |
dc.subject | Pulsed-field gel electrophoresis | en |
dc.subject | Variable number of tandem repeats | en |
dc.subject | Multilocus sequence typing | en |
dc.subject | QH426 Genetics | en |
dc.subject | T-NDAS | en |
dc.subject | SDG 3 - Good Health and Well-being | en |
dc.subject.lcc | QH426 | en |
dc.title | Clinical perspectives in integrating whole genome sequencing into the investigation of healthcare and public health outbreaks – hype or help? | en |
dc.type | Journal article | en |
dc.contributor.sponsor | The Wellcome Trust | en |
dc.contributor.institution | University of St Andrews. Infection and Global Health Division | en |
dc.contributor.institution | University of St Andrews. School of Medicine | en |
dc.contributor.institution | University of St Andrews. Sir James Mackenzie Institute for Early Diagnosis | en |
dc.contributor.institution | University of St Andrews. Centre for Biophotonics | en |
dc.contributor.institution | University of St Andrews. Biomedical Sciences Research Complex | en |
dc.contributor.institution | University of St Andrews. Global Health Implementation Group | en |
dc.contributor.institution | University of St Andrews. Gillespie Group | en |
dc.contributor.institution | University of St Andrews. Infection Group | en |
dc.contributor.institution | University of St Andrews. St Andrews Bioinformatics Unit | en |
dc.identifier.doi | 10.1016/j.jhin.2020.11.001 | |
dc.description.status | Peer reviewed | en |
dc.identifier.grantnumber | 097831/z/11/z | en |
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